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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ), 'gf_id' => 'HOM05D001032', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001032' ), 'data_identifier' => 'HOM05D001032', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001032', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '587', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p05810' => 'bna', 'A03p09630' => 'bna', 'A10p19930' => 'bna', 'Aa31LG1G6160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1190' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4351' => 'aag', 'Actinidia00898' => 'ach', 'Actinidia06105' => 'ach', 'Actinidia16248' => 'ach', 'Actinidia17567' => 'ach', 'Actinidia19931' => 'ach', 'Actinidia26237' => 'ach', 'Actinidia27275' => 'ach', 'Actinidia30547' => 'ach', 'Actinidia31960' => 'ach', 'Actinidia32921' => 'ach', 'Actinidia35067' => 'ach', 'Actinidia38290' => 'ach', 'Ah.04g153090' => 'amhyb', 'Ah.04g161480' => 'amhyb', 'Ah.13g075480' => 'amhyb', 'AL6G31310' => 'aly', 'Aqoxy2G00522' => 'aox', 'Aqoxy3G00416' => 'aox', 'Aqoxy3G03495' => 'aox', 'Aqoxy7G00449' => 'aox', 'Aqoxy7G01795' => 'aox', 'arahy.Tifrunner.gnm1.ann1.20QC9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L32FWB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCQ4HC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T9WCKL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZH29RS' => 'arhy', 'AT5G19790' => 'ath', 'ATR0691G176' => 'atr', 'ATR0693G054' => 'atr', 'ATR0730G089' => 'atr', 'ATR0737G054' => 'atr', 'ATR0757G077' => 'atr', 'Atru.chr11.1717' => 'acertr', 'Atru.chr3.2076' => 'acertr', 'Atru.chr5.407' => 'acertr', 'Atru.chr8.330' => 'acertr', 'Atru.chr9.1825' => 'acertr', 'AUR62015277' => 'cqu', 'AUR62032725' => 'cqu', 'AUR62040909' => 'cqu', 'BcaB01g04830' => 'bca', 'BcaB08g36576' => 'bca', 'BcaB08g36579' => 'bca', 'BcaB08g36580' => 'bca', 'BcaC03g13710' => 'bca', 'BcaC04g19379' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02120' => 'bna', 'BolC2t06981H' => 'bol', 'BolC3t13590H' => 'bol', 'BolC9t58502H' => 'bol', 'BraA02t05533Z' => 'bra', 'BraA03t10280Z' => 'bra', 'BraA10t44068Z' => 'bra', 'C03p11200' => 'bna', 'C09p56330' => 'bna', 'CAN.G128.60' => 'can', 'CAN.G170.49' => 'can', 'CAN.G1834.3' => 'can', 'CAN.G206.180' => 'can', 'CAN.G398.3' => 'can', 'CAN.G438.111' => 'can', 'CAN.G982.3' => 'can', 'CANSAT11G1064' => 'cansat', 'CANSAT21G0531' => 'cansat', 'CANSAT56G0460' => 'cansat', 'CANSAT64G1774' => 'cansat', 'CANSAT64G2687' => 'cansat', 'CANSAT78G1867' => 'cansat', 'CANSAT80G1934' => 'cansat', 'CARHR193100' => 'chi', 'Carub.0006s1814' => 'cru', 'Ca_00462_v3' => 'car', 'Ca_08276_v3' => 'car', 'Ca_17932_v3' => 'car', 'Ca_21731_v3' => 'car', 'Ca_23762_v3' => 'car', 'Ca_23886_v3' => 'car', 'Cc01_g00840' => 'ccan', 'Cc04_g07770' => 'ccan', 'Cc06_g23190' => 'ccan', 'Cc07_g03670' => 'ccan', 'Cfa004185' => 'cfa', 'Cfa007596' => 'cfa', 'Cfa008927' => 'cfa', 'Cfa009568' => 'cfa', 'Cfa011881' => 'cfa', 'Cfa017659' => 'cfa', 'Ciclev10013796m.g' => 'ccl', 'Ciclev10018044m.g' => 'ccl', 'Ciclev10021611m.g' => 'ccl', 'Ciclev10022187m.g' => 'ccl', 'Ciclev10023360m.g' => 'ccl', 'Ciclev10023764m.g' => 'ccl', 'Ciclev10024614m.g' => 'ccl', 'Ciclev10033847m.g' => 'ccl', 'CiPaw.01G053900' => 'cil', 'CiPaw.02G024900' => 'cil', 'CiPaw.03G021800' => 'cil', 'CiPaw.04G014500' => 'cil', 'CiPaw.06G088900' => 'cil', 'CiPaw.10G127000' => 'cil', 'CiPaw.11G107800' => 'cil', 'CiPaw.13G176300' => 'cil', 'CiPaw.14G136100' => 'cil', 'CiPaw.15G122700' => 'cil', 'CiPaw.16G082400' => 'cil', 'ClCG01G001270' => 'cla', 'ClCG04G005390' => 'cla', 'ClCG05G001890' => 'cla', 'ClCG06G015170' => 'cla', 'ClCG09G017960' => 'cla', 'COL.COLO4_07332' => 'col', 'COL.COLO4_10854' => 'col', 'COL.COLO4_12230' => 'col', 'COL.COLO4_12622' => 'col', 'COL.COLO4_27970' => 'col', 'COL.COLO4_32172' => 'col', 'COL.COLO4_35053' => 'col', 'Cpa.g.sc13.83' => 'cpa', 'Cpa.g.sc14.126' => 'cpa', 'Cpa.g.sc18.194' => 'cpa', 'Cpa.g.sc51.136' => 'cpa', 'Cpa.g.sc62.63' => 'cpa', 'CsaV3_1G003450' => 'csa', 'CsaV3_3G009290' => 'csa', 'CsaV3_4G012210' => 'csa', 'CsaV3_4G017490' => 'csa', 'CsaV3_5G001400' => 'csa', 'CsaV3_5G038270' => 'csa', 'CSS0005931' => 'camsi', 'CSS0021709' => 'camsi', 'CSS0022828' => 'camsi', 'CSS0024454' => 'camsi', 'CSS0033437' => 'camsi', 'CSS0037417' => 'camsi', 'CSS0049819' => 'camsi', 'DCAR_001981' => 'dca', 'DCAR_011075' => 'dca', 'DCAR_013680' => 'dca', 'DCAR_016007' => 'dca', 'DCAR_018870' => 'dca', 'DCAR_019874' => 'dca', 'DCAR_025387' => 'dca', 'DCAR_025470' => 'dca', 'Dinv01149' => 'din', 'Dinv06135' => 'din', 'Dinv11501' => 'din', 'Dinv13464' => 'din', 'Dinv18628' => 'din', 'Dinv26244' => 'din', 'Dinv30678' => 'din', 'Dinv32424' => 'din', 'Dinv33788' => 'din', 'Dinv34338' => 'din', 'Duzib068G0260' => 'dzi', 'Duzib068G1066' => 'dzi', 'Duzib084G0463' => 'dzi', 'Duzib128G0563' => 'dzi', 'Duzib133G0095' => 'dzi', 'Duzib138G1589' => 'dzi', 'Duzib147G1435' => 'dzi', 'Duzib168G1419' => 'dzi', 'Duzib177G0057' => 'dzi', 'Duzib187G0246' => 'dzi', 'Duzib205G1325' => 'dzi', 'Duzib251G0553' => 'dzi', 'Duzib264G0301' => 'dzi', 'ECA232G1090' => 'eca', 'ECA233G1126' => 'eca', 'ECA233G1236' => 'eca', 'ECA236G2525' => 'eca', 'ECA238G1879' => 'eca', 'ECA238G3660' => 'eca', 'ECA246G3552' => 'eca', 'ECA248G0153' => 'eca', 'EL10Ac3g06838' => 'bvu', 'EL10Ac4g10382' => 'bvu', 'Eucgr.A02109' => 'egr', 'Eucgr.B00666' => 'egr', 'Eucgr.B03605' => 'egr', 'Eucgr.I02007' => 'egr', 'Eucgr.J01042' => 'egr', 'FAN02G3121' => 'fan', 'FAN02G3132' => 'fan', 'FAN04G3229' => 'fan', 'FAN05G3411' => 'fan', 'FAN05G3762' => 'fan', 'FAN05G5508' => 'fan', 'FAN07G0374' => 'fan', 'FAN08G0361' => 'fan', 'FAN08G3646' => 'fan', 'FAN09G1342' => 'fan', 'FAN09G1644' => 'fan', 'FAN11G2765' => 'fan', 'FAN12G2418' => 'fan', 'FAN13G0656' => 'fan', 'FAN13G2013' => 'fan', 'FAN14G0898' => 'fan', 'FAN14G1053' => 'fan', 'FAN14G5006' => 'fan', 'FAN16G0602' => 'fan', 'FAN17G2786' => 'fan', 'FAN18G0154' => 'fan', 'FAN18G2384' => 'fan', 'FAN18G3060' => 'fan', 'FAN21G2620' => 'fan', 'FAN22G1687' => 'fan', 'FAN25G0805' => 'fan', 'FvH4_4g08080' => 'fve', 'FvH4_5g10260' => 'fve', 'FvH4_5g12940' => 'fve', 'FvH4_6g02490' => 'fve', 'FvH4_6g47880' => 'fve', 'Glyma.02G072800' => 'gma', 'Glyma.03G017300' => 'gma', 'Glyma.05G015900' => 'gma', 'Glyma.05G157400' => 'gma', 'Glyma.07G078600' => 'gma', 'Glyma.08G115000' => 'gma', 'Glyma.13G060600' => 'gma', 'Glyma.13G227066' => 'gma', 'Glyma.15G085400' => 'gma', 'Glyma.16G040000' => 'gma', 'Glyma.16G154100' => 'gma', 'Glyma.17G124100' => 'gma', 'Glyma.18G262800' => 'gma', 'Glyma.19G026000' => 'gma', 'Glyma.19G113100' => 'gma', 'Glyma.20G031000' => 'gma', 'Gohir.A07G056900' => 'ghi', 'Gohir.A08G114100' => 'ghi', 'Gohir.A09G013000' => 'ghi', 'Gohir.A11G234200' => 'ghi', 'Gohir.A12G103800' => 'ghi', 'Gohir.A12G163100' => 'ghi', 'Gohir.A12G243250' => 'ghi', 'Gohir.A13G099300' => 'ghi', 'Gohir.A13G210200' => 'ghi', 'Gohir.D07G061200' => 'ghi', 'Gohir.D08G121200' => 'ghi', 'Gohir.D09G011600' => 'ghi', 'Gohir.D11G245200' => 'ghi', 'Gohir.D12G107300' => 'ghi', 'Gohir.D12G166150' => 'ghi', 'Gohir.D12G244250' => 'ghi', 'Gohir.D13G102700' => 'ghi', 'Gohir.D13G214200' => 'ghi', 'Gorai.001G064900' => 'gra', 'Gorai.004G127900' => 'gra', 'Gorai.006G013600' => 'gra', 'Gorai.007G260900' => 'gra', 'Gorai.008G116800' => 'gra', 'Gorai.008G178900' => 'gra', 'Gorai.008G261800' => 'gra', 'Gorai.013G115000' => 'gra', 'Gorai.013G244500' => 'gra', 'GSVIVG01011465001' => 'vvi', 'GSVIVG01025461001' => 'vvi', 'GSVIVG01033416001' => 'vvi', 'HanXRQChr06g0169141' => 'han', 'HanXRQChr07g0199641' => 'han', 'HanXRQChr09g0264301' => 'han', 'HanXRQChr11g0321881' => 'han', 'HanXRQChr11g0353721' => 'han', 'HanXRQChr12g0361831' => 'han', 'HanXRQChr12g0361881' => 'han', 'HanXRQChr12g0362001' => 'han', 'HanXRQChr14g0448601' => 'han', 'Haze_09223' => 'cav', 'Haze_11956' => 'cav', 'Haze_14495' => 'cav', 'Haze_15223' => 'cav', 'Haze_18566' => 'cav', 'Haze_20489' => 'cav', 'Haze_22948' => 'cav', 'Hma1.2p1_0198F.1_g085350' => 'hma', 'Hma1.2p1_0340F.1_g130120' => 'hma', 'Hma1.2p1_0398F.1_g143870' => 'hma', 'Hma1.2p1_0409F.1_g146690' => 'hma', 'Hma1.2p1_0448F.1_g154810' => 'hma', 'Hma1.2p1_0448F.1_g154815' => 'hma', 'Hma1.2p1_0589F.1_g184930' => 'hma', 'HPP92_010130' => 'vpl', 'HPP92_017540' => 'vpl', 'HPP92_018453' => 'vpl', 'HPP92_020482' => 'vpl', 'HPP92_022271' => 'vpl', 'HPP92_022394' => 'vpl', 'Lalb_Chr02g0157201' => 'lal', 'Lalb_Chr07g0186551' => 'lal', 'Lalb_Chr12g0197461' => 'lal', 'Lalb_Chr14g0364571' => 'lal', 'Lalb_Chr22g0359061' => 'lal', 'Lj1g0013933' => 'lja', 'Lj1g0018080' => 'lja', 'Lj1g0027460' => 'lja', 'Lj1P1135T61' => 'lonja', 'Lj2g0022793' => 'lja', 'Lj2P149T33' => 'lonja', 'Lj3g0001330' => 'lja', 'Lj4g0001839' => 'lja', 'Lj4g0014427' => 'lja', 'Lj4g0018845' => 'lja', 'Lj4P114T24' => 'lonja', 'Lj5P141T37' => 'lonja', 'Lj7P519T38' => 'lonja', 'Lsat_1_v5_gn_1_41980' => 'lsa', 'Lsat_1_v5_gn_2_89300' => 'lsa', 'Lsat_1_v5_gn_4_169860' => 'lsa', 'Lsat_1_v5_gn_5_31460' => 'lsa', 'Lsat_1_v5_gn_6_52740' => 'lsa', 'Lsat_1_v5_gn_7_5961' => 'lsa', 'Lsat_1_v5_gn_8_49140' => 'lsa', 'Manes.01G000062' => 'mes', 'Manes.01G022500' => 'mes', 'Manes.01G101000' => 'mes', 'Manes.01G262100' => 'mes', 'Manes.02G049200' => 'mes', 'Manes.03G098000' => 'mes', 'Manes.05G040000' => 'mes', 'Manes.05G106400' => 'mes', 'Manes.05G116801' => 'mes', 'Manes.08G145400' => 'mes', 'Manes.09G140100' => 'mes', 'Manes.15G108400' => 'mes', 'Mapoly0038s0075' => 'mpo', 'MBI04_g09713_MAGBIO' => 'mbi', 'MBI12_g31185_MAGBIO' => 'mbi', 'MBI18_g03884_MAGBIO' => 'mbi', 'MBI19_g20763_MAGBIO' => 'mbi', 'MD00G1118900' => 'mdo', 'MD03G1004500' => 'mdo', 'MD06G1125700' => 'mdo', 'MD06G1208700' => 'mdo', 'MD09G1056000' => 'mdo', 'MD11G1005200' => 'mdo', 'MD12G1004600' => 'mdo', 'MD13G1252600' => 'mdo', 'MD14G1003100' => 'mdo', 'MD14G1219100' => 'mdo', 'MD16G1256800' => 'mdo', 'MD17G1053600' => 'mdo', 'Medtr2g016730' => 'mtr', 'Medtr4g082345' => 'mtr', 'Medtr4g111915' => 'mtr', 'Medtr4g112490' => 'mtr', 'Medtr6g012970' => 'mtr', 'Medtr6g029180' => 'mtr', 'Medtr7g011630' => 'mtr', 'Medtr7g085810' => 'mtr', 'Medtr8g032610' => 'mtr', 'Medtr8g085960' => 'mtr', 'MELO3C006149.2' => 'cme', 'MELO3C008810.2' => 'cme', 'MELO3C014722.2' => 'cme', 'MELO3C017272.2' => 'cme', 'MELO3C022010.2' => 'cme', 'Migut.B01690' => 'egut', 'Migut.D02554' => 'egut', 'Migut.D02583' => 'egut', 'Migut.F00403' => 'egut', 'Migut.J01881' => 'egut', 'MSTRG.20793' => 'ama', 'Nitab4.5_0000212g0120' => 'nta', 'Nitab4.5_0000358g0190' => 'nta', 'Nitab4.5_0000410g0120' => 'nta', 'Nitab4.5_0000551g0250' => 'nta', 'Nitab4.5_0000568g0200' => 'nta', 'Nitab4.5_0000571g0020' => 'nta', 'Nitab4.5_0000646g0110' => 'nta', 'Nitab4.5_0001079g0200' => 'nta', 'Nitab4.5_0001591g0110' => 'nta', 'Nitab4.5_0001874g0060' => 'nta', 'Nitab4.5_0003347g0110' => 'nta', 'Nitab4.5_0003716g0080' => 'nta', 'Nitab4.5_0004342g0120' => 'nta', 'Nitab4.5_0004550g0050' => 'nta', 'Nitab4.5_0008487g0050' => 'nta', 'Nitab4.5_0010504g0010' => 'nta', 'Nitab4.5_0022145g0010' => 'nta', 'Nn3g17647' => 'nnu', 'Nn7g35878' => 'nnu', 'Oeu004744.1' => 'oeu', 'Oeu016164.1' => 'oeu', 'Oeu020664.1' => 'oeu', 'Oeu024413.1' => 'oeu', 'Oeu027133.1' => 'oeu', 'Oeu027134.1' => 'oeu', 'Oeu035934.1' => 'oeu', 'Oeu057602.1' => 'oeu', 'Oeu059232.1' => 'oeu', 'Oeu059666.1' => 'oeu', 'Oeu062010.1' => 'oeu', 'Oeu062095.1' => 'oeu', 'Os07g0204000' => 'osa', 'Os07g0575000' => 'osa', 'Os12g0582900' => 'osa', 'Peaxi162Scf00003g04743' => 'pax', 'Peaxi162Scf00015g00067' => 'pax', 'Peaxi162Scf00017g03011' => 'pax', 'Peaxi162Scf00021g00069' => 'pax', 'Peaxi162Scf00166g00107' => 'pax', 'Peaxi162Scf00249g00718' => 'pax', 'Peaxi162Scf00349g00034' => 'pax', 'Peaxi162Scf00463g10017' => 'pax', 'Peaxi162Scf00629g00021' => 'pax', 'PGR004G1047' => 'pgr', 'PGR031G2271' => 'pgr', 'PGR042G2151' => 'pgr', 'PGR083G0634' => 'pgr', 'PGR083G1394' => 'pgr', 'PGR102G2703' => 'pgr', 'PGSC0003DMG400001343' => 'stu', 'PGSC0003DMG400005621' => 'stu', 'PGSC0003DMG400008352' => 'stu', 'PGSC0003DMG400017051' => 'stu', 'PGSC0003DMG400023701' => 'stu', 'PGSC0003DMG400024606' => 'stu', 'PGSC0003DMG400025151' => 'stu', 'Phvul.001G111800' => 'pvu', 'Phvul.002G168900' => 'pvu', 'Phvul.002G237300' => 'pvu', 'Phvul.003G180000' => 'pvu', 'Phvul.004G031900' => 'pvu', 'Phvul.004G081200' => 'pvu', 'Phvul.006G173500' => 'pvu', 'Phvul.008G039300' => 'pvu', 'Phvul.010G092300' => 'pvu', 'Potri.001G004700' => 'ptr', 'Potri.001G453100' => 'ptr', 'Potri.002G153500' => 'ptr', 'Potri.003G220200' => 'ptr', 'Potri.008G091300' => 'ptr', 'Potri.011G148900' => 'ptr', 'Potri.013G056700' => 'ptr', 'Potri.014G076702' => 'ptr', 'Potri.017G087800' => 'ptr', 'Potri.019G036100' => 'ptr', 'Pp3c25_1760' => 'ppa', 'Pp3c5_8580' => 'ppa', 'Pp3c6_14880' => 'ppa', 'Prupe.1G084800' => 'ppe', 'Prupe.3G263000' => 'ppe', 'Prupe.5G136200' => 'ppe', 'Prupe.5G213800' => 'ppe', 'Prupe.6G004400' => 'ppe', 'Prupe.7G004900' => 'ppe', 'Psat0s4340g0040' => 'psa', 'Psat1g069680' => 'psa', 'Psat1g095400' => 'psa', 'Psat1g195480' => 'psa', 'Psat3g088600' => 'psa', 'Psat3g088720' => 'psa', 'Psat4g199480' => 'psa', 'Psat7g071800' => 'psa', 'Psat7g135600' => 'psa', 'PSO017G3431' => 'pso', 'PSO017G5863' => 'pso', 'PSO063G0187' => 'pso', 'PSO063G2729' => 'pso', 'PSO339G2965' => 'pso', 'PSO384G3219' => 'pso', 'PSO478G1450' => 'pso', 'PSO478G2621' => 'pso', 'PSO478G3430' => 'pso', 'PSO782G2475' => 'pso', 'QL01p008776' => 'qlo', 'QL02p026941' => 'qlo', 'QL02p084944' => 'qlo', 'QL03p069808' => 'qlo', 'QL07p018651' => 'qlo', 'QL08p050603' => 'qlo', 'QL10p022138' => 'qlo', 'RcHm_v2.0_Chr2g0167081' => 'rch', 'RcHm_v2.0_Chr3g0450351' => 'rch', 'RcHm_v2.0_Chr4g0401791' => 'rch', 'RcHm_v2.0_Chr5g0083271' => 'rch', 'RcHm_v2.0_Chr7g0184251' => 'rch', 'RcHm_v2.0_Chr7g0187951' => 'rch', 'Rhsim03G0001800' => 'rsi', 'Rhsim07G0075800' => 'rsi', 'Rhsim08G0072400' => 'rsi', 'Rhsim13G0232200' => 'rsi', 'Sabra01G0003300' => 'sbr', 'Sabra03G0163900' => 'sbr', 'Sabra13G0050400' => 'sbr', 'Sabra17G0077600' => 'sbr', 'Sabra19G0047800' => 'sbr', 'SalBow1G6847' => 'sbo', 'SalBow2G2148' => 'sbo', 'SalBow3G0956' => 'sbo', 'SalBow5G0275' => 'sbo', 'Sc13g0002590' => 'sci', 'Sed0011834' => 'sed', 'Sed0012911' => 'sed', 'Sed0014580' => 'sed', 'Sed0022663' => 'sed', 'Sed0022795' => 'sed', 'Sed0023810' => 'sed', 'Sed0026369' => 'sed', 'SEGI_05447' => 'sgi', 'SEGI_31783' => 'sgi', 'SEGI_32364' => 'sgi', 'SGA_v2.0_scaffold6G03388' => 'sas', 'SMO119G0418' => 'smo', 'SMO141G0305' => 'smo', 'SMO147G0303' => 'smo', 'SMO343G0120' => 'smo', 'Solyc01g005630.3' => 'sly', 'Solyc01g091760.3' => 'sly', 'Solyc02g067020.1' => 'sly', 'Solyc02g088310.1' => 'sly', 'Solyc03g114440.1' => 'sly', 'Solyc03g119800.3' => 'sly', 'Solyc10g078610.1' => 'sly', 'Solyc10g080650.3' => 'sly', 'Sopen01g001650' => 'spe', 'Sopen01g037540' => 'spe', 'Sopen02g016210' => 'spe', 'Sopen02g033000' => 'spe', 'Sopen03g033540' => 'spe', 'Sopen03g038650' => 'spe', 'Sopen10g029240' => 'spe', 'Sopen10g031190' => 'spe', 'Sp3g27500' => 'spa', 'Sp6g24610' => 'spa', 'TAR003G0009' => 'tar', 'TAR369G0403' => 'tar', 'TAR371G0049' => 'tar', 'TAR622G0640' => 'tar', 'TAR622G1097' => 'tar', 'TAR623G0606' => 'tar', 'TAR629G1581' => 'tar', 'TAR636G0403' => 'tar', 'TAR636G0514' => 'tar', 'THA.LOC104799051' => 'tha', 'Thecc.01G368300' => 'tca', 'Thecc.02G339300' => 'tca', 'Thecc.03G114400' => 'tca', 'Thecc.03G214800' => 'tca', 'Thecc.04G087800' => 'tca', 'Thecc.05G248500' => 'tca', 'Thecc.09G207600' => 'tca', 'Thhalv10015715m.g' => 'esa', 'TPR.G17565' => 'tpr', 'TPR.G24394' => 'tpr', 'TPR.G25557' => 'tpr', 'TPR.G26211' => 'tpr', 'TPR.G2801' => 'tpr', 'TPR.G34062' => 'tpr', 'TPR.G4488' => 'tpr', 'TPR.G5915' => 'tpr', 'TPR.G9146' => 'tpr', 'TWI14G0022' => 'twi', 'TWI14G1310' => 'twi', 'TWI15G1045' => 'twi', 'TWI34G0671' => 'twi', 'TWI34G0880' => 'twi', 'TWI34G1937' => 'twi', 'TWI59G0587' => 'twi', 'TWI60G0001' => 'twi', 'TWI60G0008' => 'twi', 'TWI60G1502' => 'twi', 'vmacro18169' => 'vma', 'vmacro22843' => 'vma', 'vmacro23345' => 'vma', 'VMungo0251G0559' => 'vmu', 'VMungo0251G2347' => 'vmu', 'VMungo0331G0030' => 'vmu', 'VMungo0464G0629' => 'vmu', 'VMungo0464G1749' => 'vmu', 'VMungo0540G2400' => 'vmu', 'VMungo1215G3269' => 'vmu', 'VMungo1383G1348' => 'vmu', 'VMungo1383G2552' => 'vmu', 'Zm00001eb030240' => 'zma', 'Zm00001eb051660' => 'zma', 'Zm00001eb107500' => 'zma', 'Zm00001eb302890' => 'zma', 'Zm00001eb318920' => 'zma', 'Zm00001eb325260' => 'zma' ) $gf_id = 'HOM05D001032' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001032' ) $data_identifier = 'HOM05D001032' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 6, 'aar' => (int) 1, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 1, 'aox' => (int) 5, 'arhy' => (int) 5, 'ath' => (int) 1, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 3, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 7, 'cansat' => (int) 7, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 6, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 8, 'cil' => (int) 11, 'cla' => (int) 5, 'col' => (int) 7, 'cpa' => (int) 5, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 8, 'din' => (int) 10, 'dzi' => (int) 13, 'eca' => (int) 8, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 7, 'vpl' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 8, 'lonja' => (int) 5, 'lsa' => (int) 7, 'mes' => (int) 12, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 12, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 17, 'nnu' => (int) 2, 'oeu' => (int) 12, 'osa' => (int) 3, 'pax' => (int) 9, 'pgr' => (int) 6, 'stu' => (int) 7, 'pvu' => (int) 9, 'ptr' => (int) 10, 'ppa' => (int) 3, 'ppe' => (int) 6, 'psa' => (int) 9, 'pso' => (int) 10, 'qlo' => (int) 7, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 1, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 8, 'spe' => (int) 8, 'spa' => (int) 2, 'tar' => (int) 9, 'tha' => (int) 1, 'tca' => (int) 7, 'esa' => (int) 1, 'tpr' => (int) 9, 'twi' => (int) 10, 'vma' => (int) 3, 'vmu' => (int) 9, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb325260' $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